@lvwerra: We are releasing Carbon: a crazy fast DNA model Carbon is 275x faster than the next best model. So fast you can process…
Summary
HuggingFace releases Carbon, a DNA model that is 275x faster than the previous state-of-the-art (Evo2), enabling processing of the entire human genome on a single GPU in under two days. The model uses a unique tokenizer that splits sequences into 6-base chunks while maintaining single-base resolution, and comes with an interactive demo.
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We are releasing Carbon: a crazy fast DNA model
Carbon is 275x faster than the next best model. So fast you can process the whole human genome on a single GPU in <2 days.
Here are the tricks we used:
When modelling DNA sequences a lot of the performance comes down to tokenizing the sequences in a smart way. BPE tokenizer struggle because there are no whitespaces and character (called base in DNA) level tokenizers waste a lot of compute on too many tokens.
Carbon is built with a unique tokenizer: we split sequences in chunks of 6 bases, but during both training and inference we can work with single base resolution. That’s similar to having word tokens but resolving them at the character level. All possible thanks to the DNA tokens unique structure.
The architecture combined with the tokenizer makes the model 275x faster than the previous SoTA (Evo2) at this size.
We built an interactive demo so you can explore how the model can generate DNA sequences, investigate the structure of genes, predict the effect of mutations, generate and fold proteins and even reconstruct parts of the tree of life.
https://huggingface.co/spaces/HuggingFaceBio/carbon-demo…
Carbon - a Hugging Face Space by HuggingFaceBio
Source: https://huggingface.co/spaces/HuggingFaceBio/carbon-demo Fetching metadata from the HF Docker repository...
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